Failures of equipments for train control systems are linked directly to extensive damages of human lives or financial losses from the increasing uses of train control equipments utilizing computers. Then safety activities for assuring safety and reliability are needed during the system life-cycle. Risk analysis is important phase to increase safety from determining the risk presented by the identified hazard. In this paper, we investigated several methods for risk estimation of safety activities, and then we drew a comparison between original methods to suggest optimized one in the application to train control systems. In the result of the comparison, we had plan to propose the risk analysis method called Best-Practice(BP) risk method combining advantages of the qualitative and the quantitative analysis. In addition, we attempted to apply the BP-risk method to domestic train control systems handling in Korea.